BtaINT0141492 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113480991-113481568:+
Coord C1 exon
chr4:113480991-113481037
Coord A exon
chr4:113481038-113481223
Coord C2 exon
chr4:113481224-113481568
Length
186 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
CTCCCTGCTGCCTCCTGCAGGGC
3' ss Score
11.04
Exon sequences
Seq C1 exon
CTCCTGCACCCCGGAGGGCATCATATGTGAAGACGCCGAGTGTGCAG
Seq A exon
GTCTGGGGGTTCATTCCCAAACCCCCTACCCTGCTAGCCTTCCACCTTGGCCTCCGCTTATCAGCTCTGTTTGTGTTTCCCTCCCGCCGTGTTTCCAACCGCCGGCCCCTGTGTGCTGAGTGTCCCGTCCAACCCTCTGCCTCTTTGCTCCTCTGATTTCTCTAACCTCCCTGCTGCCTCCTGCAG
Seq C2 exon
GGCTCGGGGCCTGGACGCCGTGGTCCCCCTGGTCTGACTGCCCTGTCTCCTGTGGAGGTGGAAACCAGGTCCGCACCCGGGTCTGTGTGGCCTCGGCCCCTCCCCGAGGGGGCTCCCCCTGCCTGGGCCCCGATGTCCAGAGCCAGCGCTGCGGGCTGTGGCCTTGCCCGGCGCTGCCAGACACCTGCTCCTGGGGCCCCTGGGGGCCCTGCTCCCGCAGCTGCGGTCCGGGCCTGGCCTCTCGCTCTGCGTCCTGCCCCTGCCTGCTAGCTGAGGCTGAGCCCGCCTGCAACAGTACCTCCCCGCGCCTGGACACCCAGGCCTGCTATGCGGGGCCCTGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:94
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=FE(25.4=100)
A:
NA
C2:
PF0009313=VWC=PD(39.7=21.6),PF0009014=TSP_1=WD(100=44.0),PF0009014=TSP_1=WD(100=44.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGCATCATATGTGAAGACGC
R:
CAGGAGCAGGTGTCTGGCAG
Band lengths:
226-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]